Output .bed file not found in the MACS2 folder

[GopishankarThirumoorthy]

I recently ran my samples through the nf-core/chipseq pipeline and now want to use ChIPseeker for annotation. However, after checking the output, I couldn’t find the MACS2 folder containing the BED file. I would appreciate any assistance with this issue.

[ljw20180420]

Hello. It seems that this pipeline need input sample (control) to call peak. No control not peak.